BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 041165
(85 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 47/75 (62%), Gaps = 3/75 (4%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPDLKRGAF 70
L +GPWT EED K++ + G W ++ K L G R GK CR RW N+L P++K+ ++
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSW 62
Query: 71 TEDEEDQIIQLHSLL 85
TE+E+ I + H +L
Sbjct: 63 TEEEDRIIFEAHKVL 77
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPDLKRGAF 70
L +GPWT EED +++ + G W ++ K L G R GK CR RW N+L P++K+ ++
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 TEDEEDQIIQLHSLL 85
TE+E+ I Q H L
Sbjct: 60 TEEEDRIIYQAHKRL 74
>pdb|1MSE|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition
Helices
pdb|1MSF|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition
Helices
Length = 105
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPDLKRGAF 70
L +GPWT EED +++ + G W ++ K L G R GK CR RW N+L P++K+ ++
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 TEDEEDQIIQLHSLL 85
TE+E+ I Q H L
Sbjct: 60 TEEEDRIIYQAHKRL 74
>pdb|1H88|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex1
pdb|1H89|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex2
Length = 159
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPDLKRGAF 70
L +GPWT EED +++ + G W ++ K L G R GK CR RW N+L P++K+ ++
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 113
Query: 71 TEDEEDQIIQLHSLL 85
TE+E+ I Q H L
Sbjct: 114 TEEEDRIIYQAHKRL 128
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%), Gaps = 5/67 (7%)
Query: 17 WTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPDLKRGAFTEDE 74
WT EED KL + NG W+++ A L R C+ RW L P+L +G +T++E
Sbjct: 9 WTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEE 65
Query: 75 EDQIIQL 81
+ ++I+L
Sbjct: 66 DQRVIKL 72
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 45/75 (60%), Gaps = 3/75 (4%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPDLKRGAF 70
L +GPWT EED +++ + G W + K L G R GK CR RW N+L P++K+ ++
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 82
Query: 71 TEDEEDQIIQLHSLL 85
TE+E+ I Q H L
Sbjct: 83 TEEEDRIIYQAHKRL 97
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 48 RCGKSCRLRWINYLRPDLKRGAFTEDEEDQIIQ 80
R C+ RW L P+L +G +T++E+ ++I+
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIE 40
>pdb|3ZQC|A Chain A, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|D Chain D, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|G Chain G, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|J Chain J, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
Length = 131
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 5/69 (7%)
Query: 14 RGPWTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPDLKRGAFT 71
+GP+T ED + ++ NG W P++ L R K CR RW N+L P + + A+T
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 EDEEDQIIQ 80
+E++ I +
Sbjct: 59 PEEDETIFR 67
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPD 64
L +GPWT EED +L+ + G W ++ K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
>pdb|1MBG|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
pdb|1MBH|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
Length = 53
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPD 64
L +GPWT EED +++ + G W ++ K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPK-LAGLLRCGKSCRLRWINYLRPD 64
L +GPWT EED +++ + G W ++ K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
Myb1 Protein From Protozoan Parasite Trichomonas
Vaginalis
pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
From Protozoan Parasite Trichomonas Vaginalis In
Complex With Mre-1MRE-2r Dna
Length = 107
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 18 TIEEDHKLMSFILNNGIHCWRMVPKLAGLLRCGKSCRLRWINYLRPDLKRGAFTEDEE 75
T EED KL ++ G W + +L + R + CR RW NY+ P L+ ++ +E+
Sbjct: 5 TEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPEED 61
>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas
Vaginalis Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSF|D Chain D, The Structure Of Protozoan Parasite Trichomonas
Vaginalis Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSG|A Chain A, The Structure Of Protozoan Parasite Trichomonas
Vaginalis Myb2 In Complex With Mre-1-12 Dna
pdb|3OSG|D Chain D, The Structure Of Protozoan Parasite Trichomonas
Vaginalis Myb2 In Complex With Mre-1-12 Dna
Length = 126
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 6/72 (8%)
Query: 11 GLKRGPWTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPDLKRG 68
K+ +T EED L + +G W+M+ A R + CR RW NYL P +
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHG-SDWKMI---AATFPNRNARQCRDRWKNYLAPSISHT 63
Query: 69 AFTEDEEDQIIQ 80
+T +E+ ++Q
Sbjct: 64 PWTAEEDALLVQ 75
>pdb|1MBE|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
pdb|1MBF|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
Length = 53
Score = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPD 64
L + WT EED KL + NG W+++ A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 12 LKRGPWTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPD 64
L + WT EED KL + NG W+++ A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 17 WTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYLRPDLKRGAFT 71
W ED L + ++ G + W ++A LL + K C+ RW +L P +K+ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQW---SRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 17 WTIEEDHKLMSFILNNGIHCWRMVPKLAGLL--RCGKSCRLRWINYL 61
WT EED +L + + G W+ LA R + C+ RW+ L
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKF---LASHFPNRTDQQCQYRWLRVL 54
>pdb|1BVO|A Chain A, Dorsal Homologue Gambif1 Bound To Dna
Length = 175
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 9 KVGLKRGPWTIEEDHKLMSFILNN-GIHCWR 38
K G K+G T+E + MS+ NN GI C +
Sbjct: 76 KEGCKKGVCTVEINSTTMSYTFNNLGIQCVK 106
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.327 0.144 0.494
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,666,858
Number of Sequences: 62578
Number of extensions: 94683
Number of successful extensions: 219
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 192
Number of HSP's gapped (non-prelim): 19
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)